U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

SRX5375372: GSM3604853: E8.25_heart_cell80; Mus musculus; ChIP-Seq
1 ILLUMINA (Illumina HiSeq 2500) run: 5,395 spots, 744,510 bases, 533,631b downloads

Submitted by: NCBI (GEO)
Study: Profiling chromatin state by single-cell itChIP-seq [E7.75_E8.25_heart]
show Abstracthide Abstract
We present a low-cost, generalizable ChIP-seq (itChIP), compatible to both low-input and single cells for profiling chromatin states. This method combines chromatin opening, simultaneous cellular indexing and chromatin tagmentation in a single tube. Single-cell itChIP data yield ~ 5000 unique reads per cell, sufficiently defining cell identifies and subpopulations of a given cell type. Our results demonstrate that itChIP is a generalizable technology for single-cell chromatin profiling of samples limited to ultra-low number of cells. Overall design: Based on Tn5 transposition of chromatin, the generalizable itChIP combines chromatin opening, simultaneous cellular indexing and chromatin tagmentation in a single tube.
Sample: E8.25_heart_cell80
SAMN10935552 • SRS4364868 • All experiments • All runs
Organism: Mus musculus
Library:
Instrument: Illumina HiSeq 2500
Strategy: ChIP-Seq
Source: GENOMIC
Selection: ChIP
Layout: PAIRED
Construction protocol: Crosslinked cells were treated with 0.3% SDS at 62°C. Transposition was set up by incubation at 55°C for 30 min, followed by addition of stopping buffer. Soluble chromatin was used for following ChIP experiments. DNA was eluted from beads, reverse crosslinked and treated with proteinase K. Finally, DNA was extracted by pheno-chloroform. After PCR enrichment using NEBNext Q5 Ultra II master mix, products were purified and selected by AMPure XP beads for 200-1000 bp.
Experiment attributes:
GEO Accession: GSM3604853
Links:
Runs: 1 run, 5,395 spots, 744,510 bases, 533,631b
Run# of Spots# of BasesSizePublished
SRR85744275,395744,510533,631b2019-07-11

ID:
7273373

Supplemental Content

Search details

See more...

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...